I have an idea to slowly build up to a massive forum war, so this may or may not be the first step in doing so. Think fantasy football but with Sci-Fi universes.
So, who wins? Both universes have access to all weapons and species, and all militarized are at their peak strengths. Transformers has access to Unicron and Primus.
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The Transformers are physical and technological advantage to begin with. The second you gave them Unicron and Primus it went from a whoopin to an annihilation.